Hi Bruce I need to know the transformation matrix itself since I will do the transformation in matlab. I successfully transformed white matter fibers coordinates to T1 using AIR 5.0 from LONI lab. They provide a transformation matrix. Now I want to transform the coordinates from T1 to Freesurfer space, so my question is: what is the transformation matrix that relates the T1 which I have used in freesurfer for parcellation and segmentation with the aparc+aseg.mgz file produced by FS? thanks JG

On 3/19/2012 2:36 PM, Bruce Fischl wrote:

Hi Johnson

have you tried using bbregister for this? It should give you a register.dat that you can use with mri_vol2vol to transform your diffusion data into aparc+aseg space if you want.

cheers Bruce

On Mon, 19 Mar 2012, Johnson wrote:

...

Hi This is Johnson, I am researcher at univ. of IL at chicago, I have a question regarding freesurfer: What is the transformation matrix that relates the freesurfer aparc+aseg space to the aparc+aseg-in-rawavg space, I am asking this question for the following reason: I have white matter fiber tracts in Diffusion space, I managed to transform it to aparc+aseg-in-rawavg space by registering the B0 to the brainmask-in-rawavg volume. Now I want to transform it to aparc+aseg space. thanks

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